| Subject: | Bug in symmetric difference metric |
Bug report on the 'calc_symdiff' method of Bio::Phylo::Forest::Tree.
Symmdiff between the two trees below should be 0, but 23 is returned.
Users are advised not to use calc_symdiff, while I will try to have this
fixed in v.0.13.
The trees:
(((cne531:0.339269,(((((((dme9697:0.023780,aga8870:0.037111)90:0.047976,(cel1016
7:0.000000,cbr5952:0.005627)100:0.157710)100:0.147733,((((mmu2705:0.001373,hsa80
58:0.033284)99:0.038768,rno26599:0.000000)86:0.012921,gga701:0.017695)82:0.01364
3,(dre17976:0.000000,(tni4042:0.000000,fru10354:0.023602)100:0.047009)79:0.01590
1)100:0.086645)98:0.121069,(((((((sce431:0.022073,cgl2990:0.012020)78:0.021273,k
la4067:0.042105)70:0.009125,ago4532:0.095439)99:0.071578,dha6577:0.104685)85:0.0
44547,yli6618:0.165663)91:0.096462,ncr8760:0.271286)80:0.139334,tgo4242:0.259948
)27:0.040168)45:0.103778,(((pvi788:0.010532,pkn1748:0.023215)93:0.044149,pyo1354
:0.057499)85:0.056958,pfa555:0.006937)100:0.303054)31:0.046502,ddi13003:0.257905
)28:0.044253,tps8616:0.294314)31:0.036646)100:0.153925,ath9394:0.044374)100:0.09
6928,osa53631:0.006705,osa39710:0.017401);
(((cne531:0.339269,(((((((dme9697:0.023780,aga8870:0.037111)89:0.047976,(cel1016
7:0.000000,cbr5952:0.005627)100:0.157710)100:0.147733,((((mmu2705:0.001373,hsa80
58:0.033284)98:0.038768,rno26599:0.000000)73:0.012921,gga701:0.017695)81:0.01364
3,(dre17976:0.000000,(tni4042:0.000000,fru10354:0.023602)100:0.047009)67:0.01590
1)100:0.086645)100:0.121069,(((((((sce431:0.022073,cgl2990:0.012020)81:0.021273,
kla4067:0.042105)66:0.009125,ago4532:0.095439)98:0.071578,dha6577:0.104685)90:0.
044547,yli6618:0.165663)92:0.096462,ncr8760:0.271286)75:0.139334,tgo4242:0.25994
8)24:0.040168)35:0.103778,(((pvi788:0.010532,pkn1748:0.023215)93:0.044149,pyo135
4:0.057499)81:0.056958,pfa555:0.006937)100:0.303054)23:0.046502,ddi13003:0.25790
5)18:0.044253,tps8616:0.294314)28:0.036646)100:0.153925,ath9394:0.044374)100:0.0
96928,osa53631:0.006705,osa39710:0.017401);